Locus 651

Sequence ID 2L_DroMel_CAF1
Location 1,951,510 – 1,951,670
Length 160
Max. P 0.983417
window1063 window1064 window1065 window1066

overview

Window 3

Location 1,951,510 – 1,951,630
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -47.58
Consensus MFE -47.62
Energy contribution -47.38
Covariance contribution -0.25
Combinations/Pair 1.10
Mean z-score -2.57
Structure conservation index 1.00
SVM decision value 1.94
SVM RNA-class probability 0.983417
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951510 120 + 22407834
GGCAGGUGUAGGGCUUCUUGUCGUUGUGCGUGUGCAUGUGGAAGGUGAGGUUGUAGACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCU
...((((.((.((((((...((..(((((....)))))..))....)))))).)).))))((((((((((((...(((((...))))).....))))).)))))))((((.....)))). ( -45.50)
>DroEre_CAF1 3159 120 + 1
GGCAGGUGUAGGGCUUCUUGUCGUUGUGCGUGUGCAUGUGGAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCU
...(((((((.((((((...((..(((((....)))))..))....)))))).)))))))((((((((((((...(((((...))))).....))))).)))))))((((.....)))). ( -49.40)
>DroYak_CAF1 731 120 + 1
GACAGGUGUAGGGCUUCUUGUCGUUGUGCGUGUGCAUGUGGAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCU
...(((((((.((((((...((..(((((....)))))..))....)))))).)))))))((((((((((((...(((((...))))).....))))).)))))))((((.....)))). ( -49.40)
>DroAna_CAF1 23328 120 + 1
GGCAGGUGUAGGGCUUUUUGUCGUUGUGCGUGUGCAUGUGGAAGGUGAGGUUGUAGAUCUGGUGGAAGGCCUUGUUGCAGAUGCUGCACUUAUAGGCCUUCUCGCCGCUGUGGGUCAGCU
...((((.((.((((((...((..(((((....)))))..))....)))))).)).))))((((((((((((...(((((...))))).....)))))))).))))((((.....)))). ( -46.00)
>consensus
GGCAGGUGUAGGGCUUCUUGUCGUUGUGCGUGUGCAUGUGGAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCU
...(((((((.((((((...((..(((((....)))))..))....)))))).)))))))((((((((((((...(((((...))))).....)))))))).))))((((.....)))). (-47.62 = -47.38 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,951,510 – 1,951,630
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.94
Mean single sequence MFE -31.07
Consensus MFE -27.75
Energy contribution -28.50
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -3.05
Structure conservation index 0.89
SVM decision value 1.32
SVM RNA-class probability 0.942138
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951510 120 - 22407834
AGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUCUACAACCUCACCUUCCACAUGCACACGCACAACGACAAGAAGCCCUACACCUGCC
.((((.....))))(((((((((((((.....((((.....))))...))))))).....((((.....))))....)))....(((....)))............)))........... ( -28.00)
>DroEre_CAF1 3159 120 - 1
AGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUGUACAACCUCACCUUCCACAUGCACACGCACAACGACAAGAAGCCCUACACCUGCC
.((((.....))))(((...(((((((.....((((.....))))...))))))).....(((((((...(.((....((....(((....)))....))...)).)...)))))))))) ( -32.70)
>DroYak_CAF1 731 120 - 1
AGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUGUACAACCUCACCUUCCACAUGCACACGCACAACGACAAGAAGCCCUACACCUGUC
.((((.....))))((....(((((((.....((((.....))))...)))))))))..((((((((...(.((....((....(((....)))....))...)).)...)))))))).. ( -32.40)
>DroAna_CAF1 23328 120 - 1
AGCUGACCCACAGCGGCGAGAAGGCCUAUAAGUGCAGCAUCUGCAACAAGGCCUUCCACCAGAUCUACAACCUCACCUUCCACAUGCACACGCACAACGACAAAAAGCCCUACACCUGCC
.((((.....))))((((.((((((((.....(((((...)))))...)))))))))...........................(((....)))............)))........... ( -31.20)
>consensus
AGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUCUACAACCUCACCUUCCACAUGCACACGCACAACGACAAGAAGCCCUACACCUGCC
.((((.....))))((....(((((((.....((((.....))))...)))))))))..((((((((....((.....((....(((....)))....)).....))...)))))))).. (-27.75 = -28.50 +   0.75)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,951,550 – 1,951,670
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -44.50
Consensus MFE -43.54
Energy contribution -43.47
Covariance contribution -0.06
Combinations/Pair 1.09
Mean z-score -1.43
Structure conservation index 0.98
SVM decision value -0.05
SVM RNA-class probability 0.507426
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951550 120 + 22407834
GAAGGUGAGGUUGUAGACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCUUGUGGUUCUUGUAGUUGCCCUUCUGGUGGAACCCCUUGCC
...((..(((..((.(((((((((((((((((...(((((...))))).....))))).))))))).....))))).))....((((((..(((........)))..)))))))))..)) ( -45.00)
>DroEre_CAF1 3199 120 + 1
GAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCUUGUGGUUCUUGUAGUUGCCCUUCUGGUGGAACCCCUUGCC
...((..(((.....((((.((((((((((((...(((((...))))).....))))).))))))).....(((.(((((............))))))))....)))).....)))..)) ( -45.40)
>DroYak_CAF1 771 120 + 1
GAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCUUGUGGUUCUUGUAGUUGCCCUUCUGGUGGAACCCCUUGCC
...((..(((.....((((.((((((((((((...(((((...))))).....))))).))))))).....(((.(((((............))))))))....)))).....)))..)) ( -45.40)
>DroAna_CAF1 23368 120 + 1
GAAGGUGAGGUUGUAGAUCUGGUGGAAGGCCUUGUUGCAGAUGCUGCACUUAUAGGCCUUCUCGCCGCUGUGGGUCAGCUUGUGGUUCUUGUAGUUGCCCUUCUGGUGGAAGCCCUUUCC
(((((..((.(...(((.((((((((((((((...(((((...))))).....)))))))).))))((((.....))))....)).)))...).))..))))).(((....)))...... ( -42.20)
>consensus
GAAGGUGAGGUUGUACACCUGGUGGAAGGCCUUGUUGCAGAUGUUGCACUUGUAGGCCUUUUCGCCGCUGUGGGUCAGCUUGUGGUUCUUGUAGUUGCCCUUCUGGUGGAACCCCUUGCC
...((..(((.....((((.((((((((((((...(((((...))))).....)))))))).)))).....(((.(((((............))))))))....)))).....)))..)) (-43.54 = -43.47 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 6

Location 1,951,550 – 1,951,670
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.94
Mean single sequence MFE -36.44
Consensus MFE -31.45
Energy contribution -31.70
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.72
Structure conservation index 0.86
SVM decision value 0.89
SVM RNA-class probability 0.876116
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951550 120 - 22407834
GGCAAGGGGUUCCACCAGAAGGGCAACUACAAGAACCACAAGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUCUACAACCUCACCUUC
((..(((((((((........)).))))...(((.((....((((.....))))((.(..(((((((.....((((.....))))...))))))).).)).)))))....)))..))... ( -34.80)
>DroEre_CAF1 3199 120 - 1
GGCAAGGGGUUCCACCAGAAGGGCAACUACAAGAACCACAAGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUGUACAACCUCACCUUC
.....((((((.((((....((....)).............((((.....))))((.(..(((((((.....((((.....))))...))))))).).)).))))...))))))...... ( -36.50)
>DroYak_CAF1 771 120 - 1
GGCAAGGGGUUCCACCAGAAGGGCAACUACAAGAACCACAAGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUGUACAACCUCACCUUC
.....((((((.((((....((....)).............((((.....))))((.(..(((((((.....((((.....))))...))))))).).)).))))...))))))...... ( -36.50)
>DroAna_CAF1 23368 120 - 1
GGAAAGGGCUUCCACCAGAAGGGCAACUACAAGAACCACAAGCUGACCCACAGCGGCGAGAAGGCCUAUAAGUGCAGCAUCUGCAACAAGGCCUUCCACCAGAUCUACAACCUCACCUUC
((((.....))))....(((((.........(((.......((((.....))))((.(.((((((((.....(((((...)))))...))))))))).))...))).........))))) ( -37.97)
>consensus
GGCAAGGGGUUCCACCAGAAGGGCAACUACAAGAACCACAAGCUGACCCACAGCGGCGAAAAGGCCUACAAGUGCAACAUCUGCAACAAGGCCUUCCACCAGGUCUACAACCUCACCUUC
((..((((((((........((....))....)))))....((((.....))))((.(..(((((((.....((((.....))))...))))))).).))..........)))..))... (-31.45 = -31.70 +   0.25)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:59 2006